Articles with acknowledgements to the use of ALICE

Archeology

• Hunter-gatherer impact on European interglacial vegetation: A modelling approach, A. Nikulina et al., Quaternary Science Reviews, January 2024, DOI: https://doi.org/10.1016/j.quascirev.2023.108439

Astronomy and Astrophysics

• KiDS-Legacy calibration: Unifying shear and redshift calibration with the SKiLLS multi-band image simulations, S. S. Li et al., A&A, December 2022, DOI: https://doi.org/10.1051/0004-6361/202245210

• High-level ab initio quartic force fields and spectroscopic characterization of C₂N⁻, C. M. R. Rocha and H. Linnartz, Phys. Chem. Chem. Phys, November 2021, DOI: https://doi.org/10.1039/D1CP03505C

• Effects of stellar density on the photoevaporation of circumstellar discs, F. Concha-Ramirez et al., MNRAS, 501, 1782 (February 2021), DOI: https://doi.org/10.1093/mnras/staa3669

• Lucky planets: how circum-binary planets survive the supernova in one of the inner-binary components, F. Fagginger Auer & S. Portegies Zwart, eprint arXiv:2101.08033, Submitted to SciPost Astronomy (January 2021), https://ui.adsabs.harvard.edu/link_gateway/2021arXiv210108033F/arxiv:2101.08033

• Trimodal structure of Hercules stream explained by originating from bar resonances, T. Asano et al., MNRAS, 499, 2416 (December 2020), DOI: https://doi.org/10.1093/mnras/staa2849

• Oort cloud Ecology II: Extra-solar Oort clouds and the origin of asteroidal interlopers, S. Portegies Zwart, eprint arXiv:2011.08257, accepted for publication by A&A, (November 2020), https://ui.adsabs.harvard.edu/link_gateway/2020arXiv201108257P/arxiv:2011.08257

• The ecological impact of high-performance computing in astrophysics, S. Portegies Zwart, Nature Astronomy, 4, 819–822 (September 2020), DOI: https://doi.org/10.1038/s41550-020-1208-y .

Biochemistry

• Bacterial histone HBb from Bdellovibrio bacteriovorus compacts DNA by bending, Y. Hu et al., Nucleic Acids Research (June 2024), DOI: https://doi.org/10.1093/nar/gkae485

• Schwab, S., Hu, Y., van Erp, B. et al. Histones and histone variant families in prokaryotes. Nat Commun 15, 7950 (2024). https://doi.org/10.1038/s41467-024-52337-y

Biology

• A Multiscale Spatiotemporal Model Including a Switch from Aerobic to Anaerobic Metabolism Reproduces Succession in the Early Infant Gut Microbiota, D.M. Versluis et al., mSystems (September 2022), DOI: https://doi.org/10.1128/msystems.00446-22

• Tokay gecko tail regeneration involves temporally collinear expression of HOXC genes and early expression of satellite cell markers, Nurhidayat, L., Benes, V., Blom, S. et al., BMC Biol 23, 6 (2025), DOI: https://doi.org/10.1186/s12915-024-02111-9

Biophyiscs

• Hybrid cellular Potts and bead-spring modeling of cells in fibrous extracellular matrix, E. Tsingos et al., Biophysical Journal, 122, 13, 2609, (July 2023), DOI: https://doi.org/10.1016/j.bpj.2023.05.013

Computer Sciences

• Curriculum reinforcement learning for quantum architecture search under hardware errors, Yash J. Patel, Akash Kundu, Mateusz Ostaszewski, Xavier Bonet-Monroig, Vedran Dunjko and Onur Danaci, ICLR 2024 Conference (January 2024), Curriculum reinforcement learning for quantum architecture search...

• Better Distractions: Transformer-based Distractor Generation and Multiple Choice Question Filtering, J. Offerijns, V. Verberne, T. Verhoe, eprint arXiv:2010.09598, (October 2020), https://arxiv.org/abs/2010.09598

Ecology

• MycoAI: Fast and accurate taxonomic classification for fungal ITS sequences, L. Romeijn, A. Bernatavicius, D. Vu, Molecular Ecology Resources, August 2024, https://doi.org/10.1111/1755-0998.14006

• Improving estimations of life history parameters of small animals in mesocosm experiments: A case study on mosquitoes, M. Dellar, B.P. Sam, D. Holmes, Methods in Ecology and Evolution, (February 2022), https://besjournals.onlinelibrary.wiley.com/doi/10.1111/2041-210X.13814

Medical Science

• Towards robust and accurate estimates of the incubation time distribution, with focus on upper tail probabilities and SARS-CoV-2 infection, V.H. Arnzten, et al., Statistics in Medicine, (April 2023), https://doi.org/10.1002/sim.9726

Social Sciences

• Common multi-day rhythms in smartphone behavior, E. Ceolini, & A. Ghosh, npj Digital Medicine, (March 2023), https://doi.org/10.1038/s41746-023-00799-7

Leiden researchers and their use of HPC

• Identifying Earth-impacting asteroids using an artificial neural network. John D. Hefele, Francesco Bortolussi and Simon Portegies Zwart. Astronomy & Astrophysics, February 2020.

News articles featuring ALICE

• Hazardous Object Identifier: Supercomputer Helps to Identify Dangerous Asteroids, Oliver Peckman, HPC Wire, 04 March 2020, link

• Elf reuzestenen op ramkoers met de aarde?, Annelies Bes, 13 February 2020, Kijk Magazine, link

• Leidse sterrenkundigen ontdekken aardscheerders-in-spé, NOVA, 12 February 2020, link